There are few studies on the hydrologic processes of the landscape zone scales at present. Since the water environment is worsening, there is sharp contradiction between supply and demand of water resources in Shanxi province. The principle of the hydrologic processes of the landscape zones in Fenhe River headwater catchment was revealed by means of isotope tracing, hydrology geological exploration and water chemical signal study. The results showed that the subalpine meadow zone and the medium high mountain forest zone were main runoff formation regions in Fenhe River headwater catchment, while the sparse forest shrub zone and the mountain grassland zone lagged the temporal and spatial collection of the precipitation. Fenhe River water was mainly recharged by precipitation, groundwater, melt water of snow and frozen soil. This study suggested that the whole catchment precipitation hardly directly generated surface runoff, but was mostly transformed into groundwater or interflow, and finally concentrated into river channel, completed the "recharge-runoff-discharge" hydrologic processes. This study can provide scientific basis and reference for the containment of water environment deterioration, and is expected to deliver the comprehensive restoration of clear-water reflowing and the ecological environment in Shanxi province.